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1. phominis-multiomics-pipeline phominis-multiomics-pipeline Public

   Multi-omics pipeline for detecting & characterizing Pentatrichomonas hominis as a potential opportunistic pathogen in immunocompromised gut microbiomes — featuring custom genome/marker databases, N…

   Python

2. amr-kmer-pipeline amr-kmer-pipeline Public

   AMR phenotype prediction from bacterial whole-genome k-mers (POC).

   Python

3. protozoa-bacterial-ibd-dysbiosis protozoa-bacterial-ibd-dysbiosis Public

   Quantitative metagenomic pipeline & Nextflow DSL2 workflow modeling intestinal protozoa–bacterial interactions in IBD dysbiosis using Compositional Data Analysis (CoDa) and leakage-free ML.

   Python

4. Gfi1_AML_Signaling_Mapping Gfi1_AML_Signaling_Mapping Public

   Computational pipeline mapping Gfi1-regulated intercellular signaling and niche remodeling in AML using TCGA and scRNA-seq (GSE116256) data

   Python

5. HippoActInteract HippoActInteract Public

   Predicting and categorizing physical interactions between Hippo and actin pathway proteins using graph neural networks.

   Python